3st9 - Revision history

OCA at 08:37, 20 March 2024

OCA — Wed, 20 Mar 2024 08:37:02 GMT

←Older revision		Revision as of 08:37, 20 March 2024
Line 3:		Line 3:
	<StructureSection load='3st9' size='340' side='right'caption='[[3st9]], [[Resolution\|resolution]] 2.43Å' scene=''>		<StructureSection load='3st9' size='340' side='right'caption='[[3st9]], [[Resolution\|resolution]] 2.43Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3st9]] is a 7 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Staaw Staaw~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ST9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3ST9 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3st9]] is a 7 chain structure with sequence from [https://en.wikipedia.org/wiki/Staphylococcus_aureus_subsp._aureus_MW2 Staphylococcus aureus subsp. aureus MW2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ST9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3ST9 FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>~~, ~~<scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>~~	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 2.43Å</td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>~~[[~~Related_structure~~\|~~Related:~~]]~~</b></td><td class="sblockDat"><div style='overflow: auto~~; ~~max-height: 3em;'>[[3sta\|3sta]]</div>~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~clpP ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode~~=~~Info&srchmode~~=~~5&id=196620 STAAW])</td~~></tr>	+
-	<~~tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b~~></td><~~td class~~=~~"sblockDat"><span class~~=~~'plainlinks~~'>~~[https://en.wikipedia.org/wiki/Endopeptidase_Clp Endopeptidase Clp], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.92 3.4.21.92]~~ </~~span~~></td></tr>	+
	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3st9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3st9 OCA], [https://pdbe.org/3st9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3st9 RCSB], [https://www.ebi.ac.uk/pdbsum/3st9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3st9 ProSAT]</span></td></tr>		<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3st9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3st9 OCA], [https://pdbe.org/3st9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3st9 RCSB], [https://www.ebi.ac.uk/pdbsum/3st9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3st9 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/CLPP_STAAW CLPP_STAAW]] Cleaves peptides in various proteins in a process that requires ATP hydrolysis. Has a chymotrypsin-like activity. Plays a major role in the degradation of misfolded proteins (By similarity).	+	[https://www.uniprot.org/uniprot/CLPP_STAAW CLPP_STAAW] Cleaves peptides in various proteins in a process that requires ATP hydrolysis. Has a chymotrypsin-like activity. Plays a major role in the degradation of misfolded proteins (By similarity).
-	~~<div style="background-color:#fffaf0;">~~	+
-	~~== Publication Abstract from PubMed ==~~	+
-	ATP-dependent Clp protease (ClpP) is an attractive new target for the development of anti-infective agents. The ClpP protease consists of two heptameric rings that enclose a large chamber containing 14 proteolytic active sites. Recent studies indicate that ClpP likely undergoes conformational switching between an extended and degraded active state required for substrate proteolysis and a compacted and catalytically inactive state allowing product release. Here, we present the wild-type ClpP structures in two distinct states from Staphylococcus aureus. One structure is very similar to those solved ClpP structures in the extended states. The other is strikingly different from both the extended and the compacted state as observed in ClpP from other species; the handle domain of this structure kinks to take on a compressed conformation. Structural analysis and molecular dynamic simulations show that the handle domain predominantly controls the way in which degradation products exit the chamber through dynamic conformational switching from the extended state to the compressed state. Given the highly conserved sequences among ClpP from different species, this compressed conformation is unexpected and novel, which is potentially valuable for understanding the enzymatic dynamics and the acting mechanisms of ClpP.	+
-		+
-	Structural switching of Staphylococcus aureus Clp protease: a key to understanding protease dynamics.,Zhang J, Ye F, Lan L, Jiang H, Luo C, Yang CG J Biol Chem. 2011 Oct 28;286(43):37590-601. Epub 2011 Sep 7. PMID:21900233<ref>PMID:21900233</ref>	+
-		+
-	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~	+
-	~~</div>~~	+
-	~~<div class="pdbe-citations 3st9" style="background-color:#fffaf0;"></div>~~	+

	==See Also==		==See Also==
	*[[Clp protease 3D structures\|Clp protease 3D structures]]		*[[Clp protease 3D structures\|Clp protease 3D structures]]
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Endopeptidase Clp]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Staaw~~]]	+	[[Category: Staphylococcus aureus subsp. aureus MW2]]
-	[[Category: Jiang, H]]	+	[[Category: Jiang H]]
-	[[Category: Lan, L]]	+	[[Category: Lan L]]
-	[[Category: Luo, C]]	+	[[Category: Luo C]]
-	[[Category: Yang, C G]]	+	[[Category: Yang C-G]]
-	[[Category: Ye, F]]	+	[[Category: Ye F]]
-	[[Category: Zhang, J]]	+	[[Category: Zhang J]]
-	~~[[Category: Atpase-dependent protease]]~~	+
-	~~[[Category: Hydrolase~~]]	+

OCA at 08:09, 29 June 2022

OCA — Wed, 29 Jun 2022 08:09:34 GMT

←Older revision		Revision as of 08:09, 29 June 2022
Line 1:		Line 1:

	==Crystal structure of ClpP in heptameric form from Staphylococcus aureus==		==Crystal structure of ClpP in heptameric form from Staphylococcus aureus==
-	<StructureSection load='3st9' size='340' side='right' caption='[[3st9]], [[Resolution\|resolution]] 2.43Å' scene=''>	+	<StructureSection load='3st9' size='340' side='right'caption='[[3st9]], [[Resolution\|resolution]] 2.43Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3st9]] is a 7 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Staaw Staaw]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ST9 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3ST9 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3st9]] is a 7 chain structure with sequence from [https://en.wikipedia.org/wiki/Staaw Staaw]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ST9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3ST9 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3sta\|3sta]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3sta\|3sta]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">clpP ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=196620 STAAW])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">clpP ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=196620 STAAW])</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Endopeptidase_Clp Endopeptidase Clp], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.92 3.4.21.92] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Endopeptidase_Clp Endopeptidase Clp], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.92 3.4.21.92] </span></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3st9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3st9 OCA], [~~http~~://pdbe.org/3st9 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3st9 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3st9 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3st9 ProSAT]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3st9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3st9 OCA], [https://pdbe.org/3st9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3st9 RCSB], [https://www.ebi.ac.uk/pdbsum/3st9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3st9 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/CLPP_STAAW CLPP_STAAW]] Cleaves peptides in various proteins in a process that requires ATP hydrolysis. Has a chymotrypsin-like activity. Plays a major role in the degradation of misfolded proteins (By similarity).	+	[[https://www.uniprot.org/uniprot/CLPP_STAAW CLPP_STAAW]] Cleaves peptides in various proteins in a process that requires ATP hydrolysis. Has a chymotrypsin-like activity. Plays a major role in the degradation of misfolded proteins (By similarity).
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 23:		Line 23:

	==See Also==		==See Also==
-	*[[Clp ~~Protease~~\|Clp ~~Protease~~]]	+	*[[Clp protease 3D structures\|Clp protease 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 29:		Line 29:
	</StructureSection>		</StructureSection>
	[[Category: Endopeptidase Clp]]		[[Category: Endopeptidase Clp]]
		+	[[Category: Large Structures]]
	[[Category: Staaw]]		[[Category: Staaw]]
	[[Category: Jiang, H]]		[[Category: Jiang, H]]

OCA at 10:38, 4 August 2016

OCA — Thu, 04 Aug 2016 10:38:20 GMT

←Older revision		Revision as of 10:38, 4 August 2016
Line 1:		Line 1:
		+
	==Crystal structure of ClpP in heptameric form from Staphylococcus aureus==		==Crystal structure of ClpP in heptameric form from Staphylococcus aureus==
	<StructureSection load='3st9' size='340' side='right' caption='[[3st9]], [[Resolution\|resolution]] 2.43Å' scene=''>		<StructureSection load='3st9' size='340' side='right' caption='[[3st9]], [[Resolution\|resolution]] 2.43Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3st9]] is a 7 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Staphylococcus_aureus Staphylococcus aureus~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ST9 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3ST9 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3st9]] is a 7 chain structure with sequence from [http://en.wikipedia.org/wiki/Staaw Staaw]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ST9 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3ST9 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3sta\|3sta]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3sta\|3sta]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">clpP ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=~~1280 Staphylococcus aureus~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">clpP ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=196620 STAAW])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Endopeptidase_Clp Endopeptidase Clp], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.92 3.4.21.92] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Endopeptidase_Clp Endopeptidase Clp], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.92 3.4.21.92] </span></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3st9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3st9 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3st9 RCSB], [http://www.ebi.ac.uk/pdbsum/3st9 PDBsum]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3st9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3st9 OCA], [http://pdbe.org/3st9 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3st9 RCSB], [http://www.ebi.ac.uk/pdbsum/3st9 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3st9 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 19:		Line 20:
	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 3st9" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Clp Protease\|Clp Protease]]
	== References ==		== References ==
	<references/>		<references/>
Line 24:		Line 29:
	</StructureSection>		</StructureSection>
	[[Category: Endopeptidase Clp]]		[[Category: Endopeptidase Clp]]
-	[[Category: ~~Staphylococcus aureus~~]]	+	[[Category: Staaw]]
	[[Category: Jiang, H]]		[[Category: Jiang, H]]
	[[Category: Lan, L]]		[[Category: Lan, L]]

OCA at 09:02, 24 December 2014

OCA — Wed, 24 Dec 2014 09:02:05 GMT

←Older revision		Revision as of 09:02, 24 December 2014
Line 9:		Line 9:
	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3st9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3st9 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3st9 RCSB], [http://www.ebi.ac.uk/pdbsum/3st9 PDBsum]</span></td></tr>		<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3st9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3st9 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3st9 RCSB], [http://www.ebi.ac.uk/pdbsum/3st9 PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/CLPP_STAAW CLPP_STAAW]] Cleaves peptides in various proteins in a process that requires ATP hydrolysis. Has a chymotrypsin-like activity. Plays a major role in the degradation of misfolded proteins (By similarity).
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 17:		Line 19:
	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
-
-	==See Also==
-	*[[Clp Protease\|Clp Protease]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 12:00, 9 December 2014

OCA — Tue, 09 Dec 2014 12:00:09 GMT

←Older revision		Revision as of 12:00, 9 December 2014
Line 1:		Line 1:
-	[[~~Image:~~3st9.~~png~~\|~~left~~\|~~200px~~]]	+	==Crystal structure of ClpP in heptameric form from Staphylococcus aureus==
		+	<StructureSection load='3st9' size='340' side='right' caption='[[3st9]], [[Resolution\|resolution]] 2.43Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3st9]] is a 7 chain structure with sequence from [http://en.wikipedia.org/wiki/Staphylococcus_aureus Staphylococcus aureus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ST9 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3ST9 FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3sta\|3sta]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">clpP ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1280 Staphylococcus aureus])</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Endopeptidase_Clp Endopeptidase Clp], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.92 3.4.21.92] </span></td></tr>
		+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3st9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3st9 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3st9 RCSB], [http://www.ebi.ac.uk/pdbsum/3st9 PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	ATP-dependent Clp protease (ClpP) is an attractive new target for the development of anti-infective agents. The ClpP protease consists of two heptameric rings that enclose a large chamber containing 14 proteolytic active sites. Recent studies indicate that ClpP likely undergoes conformational switching between an extended and degraded active state required for substrate proteolysis and a compacted and catalytically inactive state allowing product release. Here, we present the wild-type ClpP structures in two distinct states from Staphylococcus aureus. One structure is very similar to those solved ClpP structures in the extended states. The other is strikingly different from both the extended and the compacted state as observed in ClpP from other species; the handle domain of this structure kinks to take on a compressed conformation. Structural analysis and molecular dynamic simulations show that the handle domain predominantly controls the way in which degradation products exit the chamber through dynamic conformational switching from the extended state to the compressed state. Given the highly conserved sequences among ClpP from different species, this compressed conformation is unexpected and novel, which is potentially valuable for understanding the enzymatic dynamics and the acting mechanisms of ClpP.

-	~~{{STRUCTURE_3st9\| PDB=3st9 \| SCENE= }}~~	+	Structural switching of Staphylococcus aureus Clp protease: a key to understanding protease dynamics.,Zhang J, Ye F, Lan L, Jiang H, Luo C, Yang CG J Biol Chem. 2011 Oct 28;286(43):37590-601. Epub 2011 Sep 7. PMID:21900233<ref>PMID:21900233</ref>

-	~~===Crystal structure~~ of ~~ClpP in heptameric form from Staphylococcus aureus===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_21900233}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[3st9]] is a 7 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Staphylococcus_aureus Staphylococcus aureus]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=3ST9 OCA].~~	+

	==See Also==		==See Also==
	*[[Clp Protease\|Clp Protease]]		*[[Clp Protease\|Clp Protease]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:021900233<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Endopeptidase Clp]]		[[Category: Endopeptidase Clp]]
	[[Category: Staphylococcus aureus]]		[[Category: Staphylococcus aureus]]
-	[[Category: Jiang, H.]]	+	[[Category: Jiang, H]]
-	[[Category: Lan, L.]]	+	[[Category: Lan, L]]
-	[[Category: Luo, C.]]	+	[[Category: Luo, C]]
-	[[Category: Yang, C G.]]	+	[[Category: Yang, C G]]
-	[[Category: Ye, F.]]	+	[[Category: Ye, F]]
-	[[Category: Zhang, J.]]	+	[[Category: Zhang, J]]
	[[Category: Atpase-dependent protease]]		[[Category: Atpase-dependent protease]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]

OCA at 06:00, 20 October 2012

OCA — Sat, 20 Oct 2012 06:00:37 GMT

←Older revision		Revision as of 06:00, 20 October 2012
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	[[Image:3st9.png\|left\|200px]]		[[Image:3st9.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_3st9", creates the "Structure Box" on the page.
-	You may change the PDB parameter (which sets the PDB file loaded into the applet)
-	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-	or leave the SCENE parameter empty for the default display.
-	-->
	{{STRUCTURE_3st9\| PDB=3st9 \| SCENE= }}		{{STRUCTURE_3st9\| PDB=3st9 \| SCENE= }}

	===Crystal structure of ClpP in heptameric form from Staphylococcus aureus===		===Crystal structure of ClpP in heptameric form from Staphylococcus aureus===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_21900233}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 21900233 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_21900233}}		{{ABSTRACT_PUBMED_21900233}}

	==About this Structure==		==About this Structure==
	[[3st9]] is a 7 chain structure with sequence from [http://en.wikipedia.org/wiki/Staphylococcus_aureus Staphylococcus aureus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ST9 OCA].		[[3st9]] is a 7 chain structure with sequence from [http://en.wikipedia.org/wiki/Staphylococcus_aureus Staphylococcus aureus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ST9 OCA].
		+
		+	==See Also==
		+	*[[Clp Protease\|Clp Protease]]

	==Reference==		==Reference==

OCA at 05:38, 25 January 2012

OCA — Wed, 25 Jan 2012 05:38:27 GMT

←Older revision		Revision as of 05:38, 25 January 2012
Line 1:		Line 1:
-	[[Image:3st9.~~jpg~~\|left\|200px]]	+	[[Image:3st9.png\|left\|200px]]

	<!--		<!--
Line 11:		Line 11:
	===Crystal structure of ClpP in heptameric form from Staphylococcus aureus===		===Crystal structure of ClpP in heptameric form from Staphylococcus aureus===

		+
		+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_21900233}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 21900233 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_21900233}}

	==About this Structure==		==About this Structure==
	[[3st9]] is a 7 chain structure with sequence from [http://en.wikipedia.org/wiki/Staphylococcus_aureus Staphylococcus aureus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ST9 OCA].		[[3st9]] is a 7 chain structure with sequence from [http://en.wikipedia.org/wiki/Staphylococcus_aureus Staphylococcus aureus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ST9 OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:021900233</ref><references group="xtra"/>
	[[Category: Endopeptidase Clp]]		[[Category: Endopeptidase Clp]]
	[[Category: Staphylococcus aureus]]		[[Category: Staphylococcus aureus]]

OCA at 06:20, 7 September 2011

OCA — Wed, 07 Sep 2011 06:20:27 GMT

←Older revision		Revision as of 06:20, 7 September 2011
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	[[Image:3st9.jpg\|left\|200px]]

-	The ~~entry 3st9~~ is ~~ON HOLD~~ ~~until Paper Publication~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_3st9", creates the "Structure Box" on the page.
		+	You may change the PDB parameter (which sets the PDB file loaded into the applet)
		+	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
		+	or leave the SCENE parameter empty for the default display.
		+	-->
		+	{{STRUCTURE_3st9\| PDB=3st9 \| SCENE= }}

-	~~Authors: Zhang, J., Ye, F., Lan, L., Jiang, H., Luo, C., Yang, C.-G.~~	+	===Crystal structure of ClpP in heptameric form from Staphylococcus aureus===

-	~~Description: Crystal~~ structure ~~of ClpP in heptameric form~~ from Staphylococcus aureus	+
		+	==About this Structure==
		+	[[3st9]] is a 7 chain structure with sequence from [http://en.wikipedia.org/wiki/Staphylococcus_aureus Staphylococcus aureus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ST9 OCA].
		+	[[Category: Endopeptidase Clp]]
		+	[[Category: Staphylococcus aureus]]
		+	[[Category: Jiang, H.]]
		+	[[Category: Lan, L.]]
		+	[[Category: Luo, C.]]
		+	[[Category: Yang, C G.]]
		+	[[Category: Ye, F.]]
		+	[[Category: Zhang, J.]]
		+	[[Category: Atpase-dependent protease]]
		+	[[Category: Hydrolase]]

OCA at 05:42, 27 July 2011

OCA — Wed, 27 Jul 2011 05:42:15 GMT

←Older revision		Revision as of 05:42, 27 July 2011
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 3st9 is ON HOLD	+	The entry 3st9 is ON HOLD until Paper Publication

	Authors: Zhang, J., Ye, F., Lan, L., Jiang, H., Luo, C., Yang, C.-G.		Authors: Zhang, J., Ye, F., Lan, L., Jiang, H., Luo, C., Yang, C.-G.

	Description: Crystal structure of ClpP in heptameric form from Staphylococcus aureus		Description: Crystal structure of ClpP in heptameric form from Staphylococcus aureus

OCA: Protected "3st9" [edit=sysop:move=sysop]

OCA — Wed, 20 Jul 2011 06:15:46 GMT

Protected "3st9" [edit=sysop:move=sysop]

←Older revision

Revision as of 06:15, 20 July 2011